5CIN

Crystal Structure of non-neutralizing version of 4E10 (DeltaLoop) with epitope bound


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4WY7 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5293100mM TRSI-HCl, 200mM Ammonium acetate, 30% PEG 4,000
Crystal Properties
Matthews coefficientSolvent content
2.8656.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 157.52α = 90
b = 44.66β = 113.62
c = 85.34γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152014-05-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPHOTON FACTORY BEAMLINE BL-5A1.000Photon FactoryBL-5A

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.736.198.30.08812.55.359239
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.71.7988.50.3913.34.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT4WY71.736.156860237998.220.148730.147540.17798RANDOM25.702
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.320.3-0.380.32
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.159
r_dihedral_angle_4_deg18.848
r_dihedral_angle_3_deg11.309
r_dihedral_angle_1_deg8.663
r_long_range_B_refined6.182
r_long_range_B_other5.835
r_scangle_other3.809
r_mcangle_other2.738
r_mcangle_it2.736
r_scbond_it2.447
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.159
r_dihedral_angle_4_deg18.848
r_dihedral_angle_3_deg11.309
r_dihedral_angle_1_deg8.663
r_long_range_B_refined6.182
r_long_range_B_other5.835
r_scangle_other3.809
r_mcangle_other2.738
r_mcangle_it2.736
r_scbond_it2.447
r_scbond_other2.445
r_mcbond_it1.778
r_mcbond_other1.777
r_angle_refined_deg1.535
r_angle_other_deg0.79
r_chiral_restr0.093
r_bond_refined_d0.012
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3377
Nucleic Acid Atoms
Solvent Atoms584
Heterogen Atoms25

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing